Mirobody
Lab results to LOINC codes and UCUM units, symptoms and diagnoses to ICPC-3. Offline, no API key.
제작자가 쓴 설명(영어 원문)
Biomedical MCP server: genes, variants, trials, literature, patents, optional SQL/R/biowasm tools.
이 세 가지는 절대 하나의 점수로 합치지 않아요. 의견, 측정, 인기는 서로 다른 것이니까요.
이 서버는 아직 쉬운 말로 된 요약을 쓰지 못했어요. 아래는 레지스트리에서 읽어 온 사실이에요.
쓰고 있는 AI 앱을 고른 다음 설정을 복사하세요.
ANALYSIS_BIOWASM, ANALYSIS_R, DB_TYPE, NCBI_API_KEY, S2_API_KEY, OPENFDA_API_KEY, ONCOKB_TOKEN, DISGENET_API_KEY비밀로 표시된 값은 내 계정의 열쇠예요. 절대 다른 사람과 공유하거나 채팅에 붙여 넣지 마세요.
필요한 것
어떤 앱을 쓰세요?
위에서 앱을 고르세요. 기억해 두었다가 다음부터는 버튼에 “…에 설치”라고 표시해요.
Claude Desktop → Settings → Developer → Edit Config를 열고 claude_desktop_config.json에 이 내용을 붙여 넣으세요
{
"mcpServers": {
"biomcp-ts": {
"command": "npx",
"args": [
"-y",
"biomcp"
],
"env": {
"ANALYSIS_BIOWASM": "your-value",
"ANALYSIS_R": "your-value",
"DB_TYPE": "your-value",
"NCBI_API_KEY": "your-value",
"S2_API_KEY": "your-value",
"OPENFDA_API_KEY": "your-value",
"ONCOKB_TOKEN": "your-value",
"DISGENET_API_KEY": "your-value"
}
}
}
}터미널에서 이 명령어를 실행하세요
claude mcp add biomcp-ts --env ANALYSIS_BIOWASM=your-value --env ANALYSIS_R=your-value --env DB_TYPE=your-value --env NCBI_API_KEY=your-value --env S2_API_KEY=your-value --env OPENFDA_API_KEY=your-value --env ONCOKB_TOKEN=your-value --env DISGENET_API_KEY=your-value -- npx -y biomcp실행하기 전에 빈 값을 채워 주세요.
프로젝트의 .cursor/mcp.json 또는 ~/.cursor/mcp.json에 붙여 넣으세요
{
"mcpServers": {
"biomcp-ts": {
"command": "npx",
"args": [
"-y",
"biomcp"
],
"env": {
"ANALYSIS_BIOWASM": "your-value",
"ANALYSIS_R": "your-value",
"DB_TYPE": "your-value",
"NCBI_API_KEY": "your-value",
"S2_API_KEY": "your-value",
"OPENFDA_API_KEY": "your-value",
"ONCOKB_TOKEN": "your-value",
"DISGENET_API_KEY": "your-value"
}
}
}
}브라우저가 앱을 열지 물어본 다음, 앱이 설정을 보여 주고 확인을 요청해요. 키 값은 비워 두니 직접 입력하세요.
프로젝트의 .vscode/mcp.json에 붙여 넣으세요
{
"servers": {
"biomcp-ts": {
"type": "stdio",
"command": "npx",
"args": [
"-y",
"biomcp"
],
"env": {
"ANALYSIS_BIOWASM": "your-value",
"ANALYSIS_R": "your-value",
"DB_TYPE": "your-value",
"NCBI_API_KEY": "your-value",
"S2_API_KEY": "your-value",
"OPENFDA_API_KEY": "your-value",
"ONCOKB_TOKEN": "your-value",
"DISGENET_API_KEY": "your-value"
}
}
}
}브라우저가 앱을 열지 물어본 다음, 앱이 설정을 보여 주고 확인을 요청해요. 키 값은 비워 두니 직접 입력하세요.
이 서버는 내 컴퓨터에서 실행되는데, ChatGPT는 인터넷에 있는 서버에만 연결할 수 있어요. 다른 앱을 고르세요.
선택한 앱은 이 기기의 쿠키에만 저장돼요. 계정은 필요 없어요.
ANALYSIS_BIOWASM envANALYSIS_R envDB_TYPE env이 설정은 제작자의 레지스트리 정보로 만들었어요. README와 다르면 README를 따르세요.
내 컴퓨터에서 실행돼요. 설치하면 AI 앱에 도구 목록이 나타나요.
누구나 볼 수 있는 정보를 점검했고, 코드는 읽지 않았어요. 해당하지 않는 항목은 개수에서 뺐어요. · 2026년 11월 9일 점검
레지스트리 이름이 GitHub 계정 yeyuan98 기준으로 확인되었고, 이 계정이 저장소를 소유하고 있어요
아직 GitHub에서 이 저장소를 읽어 오지 않았어요
아직 GitHub에서 이 저장소를 읽어 오지 않았어요
내 컴퓨터에서 실행되는 서버라 인터넷 엔드포인트가 없어요
내 컴퓨터에서 실행되며, 대신 로컬 설정을 사용해요
내 컴퓨터에서 실행돼요. 도구 목록은 인터넷 엔드포인트가 있는 서버에서만 읽을 수 있어요
레지스트리에서 이 카테고리의 활성 서버 전체와 비교했어요. 스타는 게시자가 저장소를 소유한 경우에만 세요.
해당하는 기본 점검 1개 중 1개를 통과했어요. 코드는 읽지 않았어요. 키나 토큰을 넣기 전에 서버가 어떤 권한을 요구하는지 확인하고, 꼭 필요한 권한만 있는 키를 쓰세요.
입력해야 할 값: NCBI_API_KEY, S2_API_KEY, OPENFDA_API_KEY, ONCOKB_TOKEN, DISGENET_API_KEY
내 컴퓨터에서 실행돼요. AI 앱이 필요할 때 실행하고, 데이터는 제작자의 서버를 거치지 않아요(서버 자체가 온라인 서비스를 호출하는 경우는 제외).
GitHub 저장소는 마지막으로 – 변경됐고, 최신 버전(1.4.3)은 2개월 전 레지스트리에 올라왔어요.
Claude Desktop, Claude Code, Cursor, VS Code처럼 MCP를 지원하는 앱에서 쓸 수 있어요. 내 컴퓨터에 Node.js도 있어야 해요.
같은 카테고리에는: Mirobody, FHIR MCP Server, Google Health MCP
같은 카테고리에서 다른 제작자가 만든 서버예요. 스타 순으로 정렬했어요.
카드 보는 법:↓ 주간 다운로드i★ GitHub 스타i세 기둥: 리뷰 · 점검 · 사용 정도i업데이트 = 최신 버전을 레지스트리에 공개한 날i
Lab results to LOINC codes and UCUM units, symptoms and diagnoses to ICPC-3. Offline, no API key.
MCP server providing seamless access to FHIR APIs for AI tools and healthcare applications
Privacy-first unofficial Google Health API v4 MCP server for health, sleep, activity, HR agents
제작자의 저장소에서 쓰인 그대로 가져왔어요. PopNx MCP가 검토하거나 보증한 내용이 아니에요. HTML, 이미지, 스크립트는 제거했어요. 링크를 누르면 이 사이트를 벗어나요.
Democratizing agentic access to bioinformatics and biopharmaceutical databases and analyses.
npx -y biomcp doctor # diagnose a machine: Node gate, config health, feature gates, peer deps
npx biomcp # zero-config stdio MCP server (this is what MCP clients run); Node >= 22.13
Setup is guided in [docs/AGENT-INSTALL.md](docs/AGENT-INSTALL.md) — a one-minute start, copy-paste config entries for Claude Desktop, Claude Code, Codex, and OpenCode (one canonical pinned command covering every feature), biomcp doctor as the single troubleshooting entry point, and agent-friendly paths for API keys and optional features.
Multiple agents on one machine: biomcp enforces arXiv's Terms-of-Use rate limit (1 request / 3 s) per process. When running multiple biomcp MCP instances on one machine (e.g., one stdio instance per agent), rate limits are not coordinated across processes, and arXiv's TOU applies to all your machines in aggregate. For multi-agent single-machine deployments, run a single shared biomcp serve daemon (see docs/SELF-HOSTING.md) so all agents share one process and one global rate limiter.
Full tool schemas (params, enums, defaults) live in src/server/README.md.
| Tool | Description |
|---|---|
gene_search | Search genes by symbol, name, or keyword with chromosome filter |
gene_get | Get detailed gene info by HGNC symbol with optional sections (core, pathways, protein, ontology, go, interactions, expression, protein_atlas, constraint, druggability, dosage_sensitivity, clinical_evidence, disease_associations, diseases, funding). Set smart=true to auto-resolve gene aliases (e.g., "HER2" → "ERBB2") |
gene_diseases | Get diseases associated with a gene (DisGeNET / OpenTargets) |
gene_drugs | Find drugs targeting a gene (OpenTargets; envelope { results, warnings?, errors? } — OpenTargets failures and unresolved genes ride in errors[], never as inline rows) |
gene_trials | Find clinical trials for a gene |
gene_articles | Find articles about a gene (federated across PubMed, EuropePMC, Semantic Scholar, arXiv, PubTator, LitSense; envelope { results, warnings?, errors? } — per-backend failures ride in errors) |
gene_enrich | Pathway enrichment analysis for a gene list (Reactome) |
| Tool | Description |
|---|---|
variant_search | Search variants by rsid, HGVS, gene, ClinVar significance, frequency, CADD |
variant_get | Get detailed variant info with optional sections (frequency, predictions, clinical; alphagenome_scores currently returns an unavailability error pending reimplementation) |
variant_oncokb | Get OncoKB cancer variant annotations (requires ONCOKB_TOKEN) |
variant_trials | Find clinical trials for a variant |
| Tool | Description |
|---|---|
drug_search | Search drugs by name, mechanism, or keyword (envelope { results, hint? } — when nothing matches, hint points mechanism/target queries at gene_drugs) |
drug_get | Get detailed drug info with optional sections (us_regulatory, who_regulatory, safety, targets, indications, adverse_events — FDA FAERS reactions ranked by report count; WHO PQ listing lookup, ~650 global-health priority products) |
drug_trials | Find clinical trials for a drug |
| Tool | Description |
|---|---|
disease_search | Search diseases by name, phenotype, or keyword (envelope { results, warnings?, errors? }) |
disease_get | Get detailed disease info by ID (DOID, MONDO, OMIM, etc.) with optional sections (gene_associations, phenotypes, pathways) |
disease_drugs | Get drugs for a disease (OpenTargets; envelope { results, warnings?, errors? } — OpenTargets failures and unresolved diseases ride in errors[], never as inline rows) |
disease_trials | Get clinical trials for a disease (ClinicalTrials.gov; envelope { results, warnings?, errors? }) |
| Tool | Description |
|---|---|
article_search | Federated literature search across PubMed, EuropePMC, Semantic Scholar, arXiv, PubTator, and LitSense with optional date range filtering; source: "preprint_only" switches to bioRxiv+medRxiv preprints only (abstracts, citation counts, date filtering). Result records carry journal_issn |
article_get | Get detailed article info by identifier (PMID, PMCID, DOI, or bioRxiv/medRxiv preprint DOI) with optional sections: fulltext (the complete article text when freely readable in PMC/Europe PMC — open-access AND free-to-read articles; by default (fulltext_output="file") written to a server-side markdown file with the reply carrying file_path + an outline of headings with line numbers and char counts for selective Read/Grep, keeping body text out of the agent context; fulltext_output="inline" returns capped text sections via fulltext_max_chars, default 40000), oa (open-access/license metadata and links: status open_access/free_to_read/paywalled/not_in_pmc/unknown, license, pmc/pdf/doi links), annotations, graph (citation graph), citation (fast/full citation data; Europe PMC citations for preprints). all excludes fulltext. Preprint records include all versions, license, category, funders, JATS full-text URL (link only — use preprint_fulltext for the text), and published-version mapping. The record carries journal_issn |
preprint_fulltext | On-demand bioRxiv/medRxiv preprint full text (JATS XML parsed to sections), by preprint DOI with optional version (default: latest). Strictly on-demand (never during search), downloads are paced (≥3 s spacing), cached per (doi, version) — JATS per version is immutable — and license-aware (cc_by → cc by + CC URL on every reply; the per-article license governs reuse). www.biorxiv.org rate-limits aggressively: on a 429/Cloudflare verdict all downloads pause ≥60 s (Retry-After honored) and calls during the cooldown get an honest rate_limited envelope with retry_after_sec; cached copies keep serving instantly. output="file" (default) writes a server-side markdown file (file_path + outline); output="inline" returns capped sections (fulltext_max_chars). Corpus-scale: use the bioRxiv/medRxiv monthly S3 buckets (https://www.biorxiv.org/tdm) |
journal_metrics | OpenAlex journal quality metrics (2yr mean citedness — an open-access impact-factor alternative), h-index, quality lists; by name, NLM abbreviation, or ISSN |
| Tool | Description |
|---|---|
trial_search | Search clinical trials by condition, intervention, status, or phase. Cursor-based pagination via page_token |
trial_get | Get detailed trial info by NCT ID with optional sections (eligibility, locations, outcomes) |
| Tool | Description |
|---|---|
discover | Free-text concept resolution across all entity types |
batch_get | Retrieve multiple entities in parallel |
| Tool | Description |
|---|---|
pdb | Search PDB structures, get entry metadata with optional sections (polymer entities, ligands, assembly, experiment, citation), and download structure files (mmCIF/PDB) |
| Tool | Description |
|---|---|
patent_search | Search patents worldwide (US, EP, WO, JP, 100+ authorities) with assignee/inventor/CPC/status/date filters and relevance ranking (sort_by). Quote exact multi-word concepts (e.g. "flow cytometry"). Foundational prior art is auto-discovered via co-citation mining (seminal_prior_art; disable with seminal: false). Default backends: USPTO Public Search full-text (US, keyless, relevance-ranked) + EPO OPS (worldwide, keyed); uspto_odp (US bibliographic metadata) and google_patents (best-effort) available via source |
patent_get | Get patent details by publication number with sections: abstract, claims (US fulltext via USPTO Public Search; EP/WO via EPO OPS when configured, otherwise Google Patents pages), citations (forward + backward), family, classifications |
| Tool | Description |
|---|---|
geo_search | Search NCBI GEO for functional genomics studies (expression microarrays, RNA-seq, single-cell series) by entry type (GSE/GSM/GPL/GDS) and organism; results carry cross-links (bioproject, pubmed_ids; sra_project when NCBI links the SRA study — otherwise geo_get's sra field) for chaining |
geo_get | Get the full SOFT record for a GEO series/sample/platform: summary, organisms, sample preview (≤20), supplementary file URLs, and cross-references; optionally download the first supplementary file. GDS curated DataSets return structured guidance ({ accession, guidance, see_also: { series, sample } }) pointing at the underlying GSE/GSM instead of a record |
| Tool | Description |
|---|---|
sra_search | Search NCBI's Sequence Read Archive for sequencing experiments and runs by free text, accession, or field syntax; returns experiment/study/sample accessions with library strategy and run counts |
sra_get | Get full details for an SRA accession: run (SRR/ERR/DRR — instrument, spots, bases, size), experiment (SRX/ERX/DRX — library design), study (SRP/ERP/DRP — experiment list), or sample (SRS/ERS/DRS); NCBI SRA indexes NCBI, ENA, and DDBJ accessions alike |
| Tool | Description |
|---|---|
genbank_search | Search NCBI nucleotide records (GenBank/RefSeq/INSDC) by plain terms, accession, or field syntax; results include accession.version, definition, length, organism, topology |
genbank_get | Fetch a GenBank/RefSeq record as GenBank flat file or FASTA; whole records capped at 2 Mb — larger records require a seq_start/seq_stop region (up to 10 Mb, reverse-strand via strand=2) |
genbank_genes | Map a GenBank/RefSeq accession to its NCBI Gene IDs (elink nuccore→gene) for bridging into gene tools |
| Tool | Description |
|---|---|
gtex_expression | Get median gene expression across GTEx tissues (Analysis v10, 54 tissue sites, TPM, highest first); accepts HGNC symbol or Ensembl gene ID, with optional single-tissue filter |
gtex_eqtl | Get significant cis-eQTL associations for a gene in a specific GTEx tissue (v10): variant_id, p_value, NES, slope, sorted by ascending p-value |
| Tool | Description |
|---|
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앞부분만 보여 드려요. 나머지는 저장소에서 읽어 보세요